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MCL coexpression mm9:1375: Difference between revisions

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|ontology_enrichment_disease=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0009854!3.92e-14!23;UBERON:0009856!3.92e-14!23;UBERON:0002107!2.05e-13!22;UBERON:0007499!2.05e-13!22;UBERON:0006925!2.05e-13!22;UBERON:0009497!2.05e-13!22;UBERON:0000015!2.05e-13!22;UBERON:0002423!2.05e-13!22;UBERON:0006235!2.05e-13!22;UBERON:0008835!2.05e-13!22;UBERON:0003894!2.05e-13!22;UBERON:0004161!2.05e-13!22;UBERON:0008836!2.05e-13!22;UBERON:0002365!8.39e-12!25;UBERON:0002330!8.39e-12!25;UBERON:0005172!9.71e-12!49;UBERON:0005173!9.71e-12!49;UBERON:0002417!9.71e-12!49;UBERON:0000916!9.71e-12!49;UBERON:0005256!5.29e-10!45;UBERON:0001007!1.15e-09!116;UBERON:0001555!1.15e-09!116;UBERON:0007026!1.15e-09!116;UBERON:0004119!1.46e-09!118;UBERON:0000925!1.46e-09!118;UBERON:0006595!1.46e-09!118;UBERON:0005409!1.94e-09!47;UBERON:0004921!3.57e-09!114;UBERON:0003104!1.61e-08!61;UBERON:0009142!1.61e-08!61;UBERON:0000160!3.40e-08!31;UBERON:0005177!6.83e-08!79;UBERON:0009569!6.95e-08!66;UBERON:0000468!4.77e-07!333;UBERON:0003914!9.34e-07!47
|ontology_enrichment_uberon=UBERON:0009854!3.92e-14!23;UBERON:0009856!3.92e-14!23;UBERON:0002107!2.05e-13!22;UBERON:0007499!2.05e-13!22;UBERON:0006925!2.05e-13!22;UBERON:0009497!2.05e-13!22;UBERON:0000015!2.05e-13!22;UBERON:0002423!2.05e-13!22;UBERON:0006235!2.05e-13!22;UBERON:0008835!2.05e-13!22;UBERON:0003894!2.05e-13!22;UBERON:0004161!2.05e-13!22;UBERON:0008836!2.05e-13!22;UBERON:0002365!8.39e-12!25;UBERON:0002330!8.39e-12!25;UBERON:0005172!9.71e-12!49;UBERON:0005173!9.71e-12!49;UBERON:0002417!9.71e-12!49;UBERON:0000916!9.71e-12!49;UBERON:0005256!5.29e-10!45;UBERON:0001007!1.15e-09!116;UBERON:0001555!1.15e-09!116;UBERON:0007026!1.15e-09!116;UBERON:0004119!1.46e-09!118;UBERON:0000925!1.46e-09!118;UBERON:0006595!1.46e-09!118;UBERON:0005409!1.94e-09!47;UBERON:0004921!3.57e-09!114;UBERON:0003104!1.61e-08!61;UBERON:0009142!1.61e-08!61;UBERON:0000160!3.40e-08!31;UBERON:0005177!6.83e-08!79;UBERON:0009569!6.95e-08!66;UBERON:0000468!4.77e-07!333;UBERON:0003914!9.34e-07!47
|tfbs_overrepresentation_for_novel_motifs=0.491922,0.473747,0.464605,0.535892,0.346849,0.550971,0.645383,0.247459,0.257202,0.283981,0.599767,0.632897,0.247704,0.6581,0.955327,0,0.856992,0.338549,0.232269,0.442204,0.426133,0.35122,0.657163,0.345236,0.472505,0.686615,0.63639,0.572827,0.394364,0.181062,0.558142,0.960397,0.892985,0.589948,0.364821,0.144368,0.326478,0.629145,0.820134,0.752287,0.342638,0.56353,0.0995018,0.366415,0.368882,0.524258,0.77511,0.589246,0.0835644,0.397446,0.839084,0.714419,0.517905,1.10437,1.12205,0.66551,0.406788,0.619643,0.21472,0.663395,0.939962,0.724164,0.269393,0.827522,0.677043,0.869046,1.2599,1.61148,0.935192,1.46355,0.444872,2.01303,0.11437,1.156,0.208101,0.19692,0.204132,0.763395,0.922432,0.430551,0.708505,0.874787,0.722675,0.676326,1.03903,0.0539203,1.25531,0.181203,0.780154,1.77427,1.33021,1.04409,0.973447,0.35304,0.810643,0.769162,0.244935,0.976308,0.775372,0.160254,0.326561,0.960112,1.08669,0.839694,0.838613,0.563071,0.8998,0.585058,0.435642,0.428007,0.484547,1.0885,0.431734,0.605144,1.33732,0.340765,0.247162,0.53982,0.858327,0.322606,1.16147,0.805995,0.688501,0.762461,1.39185,0.926209,0.65384,0.966541,1.25836,0.356163,1.06946,1.30967,1.2285,0.679647,1.35909,0.347287,0.500709,0.564999,1.30952,2.14327,1.74232,1.26465,0.700956,0.971067,0.831964,0.564002,0.778321,2.10357,0.503174,0.920761,0.183562,0.0987301,1.10596,1.42796,0.678689,1.18867,0.71546,0.376898,0.48935,0.500417,1.31911,1.03816,0.926663,1.21135,0.82857,0.671017,0.325308,0.63125,0.30995
}}
}}

Revision as of 19:49, 26 November 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr15:78240169..78240178,+p9@Mpst
Mm9::chr19:32669903..32669938,+p5@Papss2
Mm9::chr3:98084350..98084367,+p1@Hmgcs2
Mm9::chr7:133819942..133819953,-p2@Sult1a1
Mm9::chr7:90780497..90780532,+p1@Stard5
Mm9::chr8:120225837..120225856,+p1@Hsd17b2


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


GO IDGO nameFDR corrected p-value
GO:0008202steroid metabolic process4.52099326239946e-06
GO:0006694steroid biosynthetic process4.71792564992609e-05
GO:0044255cellular lipid metabolic process0.000256852910400137
GO:0006629lipid metabolic process0.000335389894977196
GO:0008610lipid biosynthetic process0.000763104595152154
GO:0016782transferase activity, transferring sulfur-containing groups0.00174788185367212
GO:00167843-mercaptopyruvate sulfurtransferase activity0.00432022915998153
GO:0004779sulfate adenylyltransferase activity0.00503957698138634
GO:0017067tyrosine-ester sulfotransferase activity0.00503957698138634
GO:0004781sulfate adenylyltransferase (ATP) activity0.00503957698138634
GO:0004421hydroxymethylglutaryl-CoA synthase activity0.00503957698138634
GO:0004020adenylylsulfate kinase activity0.00503957698138634
GO:0050327testosterone 17-beta-dehydrogenase activity0.00668680369197086
GO:0016740transferase activity0.00668680369197086
GO:0004062aryl sulfotransferase activity0.00671759538684697
GO:0006791sulfur utilization0.00671759538684697
GO:0004792thiosulfate sulfurtransferase activity0.00671759538684697
GO:0000103sulfate assimilation0.00671759538684697
GO:0016783sulfurtransferase activity0.00755625970617706
GO:0046912transferase activity, transferring acyl groups, acyl groups converted into alkyl on transfer0.00755625970617706
GO:0005743mitochondrial inner membrane0.00906493270344742
GO:0017127cholesterol transporter activity0.00906493270344742
GO:0015248sterol transporter activity0.00906493270344742
GO:0019866organelle inner membrane0.00906493270344742
GO:0004303estradiol 17-beta-dehydrogenase activity0.00906493270344742
GO:0015485cholesterol binding0.00906493270344742
GO:0031966mitochondrial membrane0.00906493270344742
GO:0005740mitochondrial envelope0.0101810170544678
GO:0008272sulfate transport0.0124949266956514
GO:0009058biosynthetic process0.012702024894884
GO:0044429mitochondrial part0.012702024894884
GO:0032934sterol binding0.0132071635044364
GO:0008299isoprenoid biosynthetic process0.0155449035455494
GO:0031975envelope0.0157144263002789
GO:0031967organelle envelope0.0157144263002789
GO:0016229steroid dehydrogenase activity0.0175926767312476
GO:0006695cholesterol biosynthetic process0.0179298479355187
GO:0006720isoprenoid metabolic process0.0224012732010386
GO:0016126sterol biosynthetic process0.0224012732010386
GO:0031090organelle membrane0.0260908927637333
GO:0008146sulfotransferase activity0.0322638411090593
GO:0005319lipid transporter activity0.0328471924877397
GO:0005496steroid binding0.0328471924877397
GO:0044237cellular metabolic process0.0397355137963694
GO:0006790sulfur metabolic process0.039997660765998
GO:0008203cholesterol metabolic process0.0417138401059138
GO:0016125sterol metabolic process0.0452483082324079
GO:0006869lipid transport0.0461587442985047



Relative expression of the co-expression cluster over median <br>Analyst:





Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br>uberon_data<br><br>


Uber Anatomy
Ontology termp-valuen
digestive tract diverticulum3.92e-1423
sac3.92e-1423
liver2.05e-1322
epithelial sac2.05e-1322
digestive gland2.05e-1322
epithelium of foregut-midgut junction2.05e-1322
anatomical boundary2.05e-1322
hepatobiliary system2.05e-1322
foregut-midgut junction2.05e-1322
hepatic diverticulum2.05e-1322
liver primordium2.05e-1322
septum transversum2.05e-1322
liver bud2.05e-1322
exocrine gland8.39e-1225
exocrine system8.39e-1225
abdomen element9.71e-1249
abdominal segment element9.71e-1249
abdominal segment of trunk9.71e-1249
abdomen9.71e-1249
trunk mesenchyme5.29e-1045
digestive system1.15e-09116
digestive tract1.15e-09116
primitive gut1.15e-09116
endoderm-derived structure1.46e-09118
endoderm1.46e-09118
presumptive endoderm1.46e-09118
gastrointestinal system1.94e-0947
subdivision of digestive tract3.57e-09114
mesenchyme1.61e-0861
entire embryonic mesenchyme1.61e-0861
intestine3.40e-0831
trunk region element6.83e-0879
subdivision of trunk6.95e-0866
multi-cellular organism4.77e-07333
epithelial tube9.34e-0747


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs




JASPAR motifs


Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}